Variant report

Variant	rs11552549
Chromosome Location	chr6:36570202-36570203
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36510024..36516034-chr6:36569455..36577118,9	MCF-7	breast:
2	chr6:36559895..36571260-chr6:36642384..36648914,19	MCF-7	breast:
3	chr6:36339409..36341953-chr6:36569258..36572239,2	K562	blood:

Variant related genes	Relation type
ENSG00000112079	Chromatin interaction
ENSG00000124762	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs17553386	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3087654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56799886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56814071	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56845418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56900755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56900950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58073599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59274016	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59569857	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59715484	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61631302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62402215	0.86[ASN][1000 genomes]
rs73408319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408323	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408326	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408342	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408347	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408352	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408354	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408360	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73408367	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408370	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408373	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408391	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408394	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408399	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410211	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410218	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410225	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410228	0.91[AFR][1000 genomes]
rs73410230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410235	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410237	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410240	0.92[EUR][1000 genomes]
rs73410246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
2	nsv969391	chr6:36569791-36570791	Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36562600-36570400	Transcr. at gene 5' and 3'	Dnd41	blood
2	chr6:36562600-36571800	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:36564000-36570400	Transcr. at gene 5' and 3'	Primary T regulatory cells fromperipheralblood	blood
4	chr6:36564000-36571600	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
5	chr6:36564400-36570400	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
6	chr6:36564800-36570400	Genic enhancers	Primary B cells from peripheral blood	blood
7	chr6:36565400-36574200	Genic enhancers	Fetal Heart	heart
8	chr6:36566400-36570400	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr6:36566600-36577400	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:36566800-36570600	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:36566800-36577800	Strong transcription	H9 Cell Line	embryonic stem cell
12	chr6:36566800-36582800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:36567000-36574400	Genic enhancers	A549	lung
14	chr6:36567000-36580400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr6:36567400-36570400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:36567600-36578400	Genic enhancers	Liver	Liver
17	chr6:36567800-36575600	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr6:36568000-36570400	Strong transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr6:36568000-36570400	Genic enhancers	Brain Cingulate Gyrus	brain
20	chr6:36568000-36572200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:36568000-36574200	Genic enhancers	Rectal Smooth Muscle	rectum
22	chr6:36568000-36575200	Strong transcription	H1 Cell Line	embryonic stem cell
23	chr6:36568000-36576200	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr6:36568000-36577800	Strong transcription	ES-I3 Cell Line	embryonic stem cell
25	chr6:36568000-36581400	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr6:36568200-36570400	Genic enhancers	Brain Inferior Temporal Lobe	brain
27	chr6:36568200-36570800	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
28	chr6:36568200-36571000	Weak transcription	Ovary	ovary
29	chr6:36568200-36572000	Genic enhancers	Brain Substantia Nigra	brain
30	chr6:36568200-36572200	Strong transcription	Left Ventricle	heart
31	chr6:36568200-36573000	Strong transcription	Fetal Muscle Trunk	muscle
32	chr6:36568200-36573600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr6:36568200-36574200	Genic enhancers	Muscle Satellite Cultured Cells	--
34	chr6:36568200-36574200	Genic enhancers	Duodenum Smooth Muscle	Duodenum
35	chr6:36568200-36574400	Strong transcription	Colonic Mucosa	Colon
36	chr6:36568200-36575200	Strong transcription	Placenta Amnion	Placenta Amnion
37	chr6:36568200-36577400	Genic enhancers	NHEK	skin
38	chr6:36568200-36580200	Strong transcription	HUES48 Cell Line	embryonic stem cell
39	chr6:36568400-36571000	Weak transcription	Stomach Mucosa	stomach
40	chr6:36568400-36571200	Genic enhancers	Primary neutrophils fromperipheralblood	blood
41	chr6:36568400-36575800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr6:36568600-36570400	Genic enhancers	Primary T cells fromperipheralblood	blood
43	chr6:36568600-36570800	Genic enhancers	NH-A	brain
44	chr6:36568600-36571200	Strong transcription	Fetal Intestine Large	intestine
45	chr6:36568600-36573600	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr6:36568600-36574000	Genic enhancers	Colon Smooth Muscle	Colon
47	chr6:36568600-36574200	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr6:36568600-36576000	Genic enhancers	Osteobl	bone
49	chr6:36568600-36576200	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
50	chr6:36568600-36577600	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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